/*
 * Copyright 2010-2012 Susanta Tewari. <freecode4susant@users.sourceforge.net>
 *
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program.  If not, see <http://www.gnu.org/licenses/>.
 */

package genomemap.tagging;

import genomemap.data.Clone;
import genomemap.data.ComplementationData;
import genomemap.data.Gene;

import java.util.Collection;
import java.util.Map;

/**
 *
 * @author stewari1
 */
public class ComplementationTaginStrategy extends TaggingStrategy {

    /** Field description */
    private final Map<String, Collection<String>> compl_data;

    /**
     * Constructs ...
     *
     * @param complementationData description
     */
    public ComplementationTaginStrategy(ComplementationData complementationData) {
        this.compl_data = complementationData.getGeneCloneTagData();
    }

    @Override
    public void tag() {

        for (Clone clone : clones) {

            if (!clone.isTagged()) {

                for (Gene gene : genes) {

                    if (!gene.isTagged() && taggable(gene, clone)) {

                        gene.addTaggedClone(clone);
                        clone.addTaggedGene(gene);

                        break;
                    }
                }
            }
        }
    }

    /**
     * Method description
     *
     * @param gene description
     * @param clone description
     *
     * @return description
     */
    private boolean taggable(Gene gene, Clone clone) {

        if (!compl_data.keySet().contains(gene.getLabel())) return false;
        if (!compl_data.get(gene.getLabel()).contains(clone.getLabel())) return false;

        return true;
    }
}
